Antigen

Antigen Class

TFs and others

Antigen

PPARA

Cell type

Cell type Class

Liver

Cell type

Hep G2

Primary Tissue

Liver

Tissue Diagnosis

Carcinoma Hepatocellular

Sample

source_name

HEPG2 cells

cell line

HEPG2

treatment

Transfection with PPARa+ Estrogen receptor alpha and treated with their respective agonist.

agonist

PPARa agonist Wy13643 + Ea stimulated agonist PPT

chip antibody

anti-PPAR alpha antibody (Abcam, Catalog No.- ab227074, Lot name- GR3201839-22)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

SimpleChIP Enzymatic Chromatin IP kit (CST) was used for immunoprecipitation following manufacturer's instruction. Cells were washed with ice cold PBS twice and then crosslinked by incubating with 1% formaldehyde for 10 min. The reaction was stopped by the addition of 2.5 M glycine and the plates were washed twice with ice cold PBS. Chromatin was treated with nuclease and subjected to sonication. Immunoprecipitation was performed with PPARα specific antibody (Abcam ChIP-grade ab227074) and Protein G magnetic beads. Chromatin was eluted from the beads, uncrosslinked and purified. ChIP and input DNA libraries were prepared using Clontech DNA SMART kit (Takara Bio 634866).

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

25734659

Reads aligned (%)

88.2

Duplicates removed (%)

6.1

Number of peaks

245740 (qval < 1E-05)

hg19

Number of total reads

25734659

Reads aligned (%)

88.0

Duplicates removed (%)

6.2

Number of peaks

243866 (qval < 1E-05)